RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10861
(498 letters)
>4dgl_A Casein kinase II subunit beta; protein kinase, transferase; 3.00A
{Homo sapiens} PDB: 2r6m_A 1jwh_C 1ds5_E*
Length = 215
Score = 253 bits (647), Expect = 3e-82
Identities = 167/282 (59%), Positives = 176/282 (62%), Gaps = 97/282 (34%)
Query: 150 MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDD 209
MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPD+
Sbjct: 1 MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDE 60
Query: 210 ELEDNPNQSDLIEQASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCESQPML 269
ELEDNPNQSDLIEQA+EMLYGLIHARYILTNRGI QM+EKYQ GDFG+CPRVYCE+QPML
Sbjct: 61 ELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPML 120
Query: 270 PIDDELEDNPNQSDLIEQASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCES 329
PI L D P ++ ++YC
Sbjct: 121 PIG--LSDIPGEA---------------------------------------MVKLYC-- 137
Query: 330 QPMLPIGLSDVPGEAMVKSYCPKCMDVYTPKSSRHHHTDGLSDVPGEAMVKSYCPKCMDV 389
PKCMDVYT
Sbjct: 138 ---------------------PKCMDVYT------------------------------- 145
Query: 390 YTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRPVNQFVP 431
PKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRP NQFVP
Sbjct: 146 --PKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRPANQFVP 185
Score = 96.9 bits (241), Expect = 2e-23
Identities = 56/63 (88%), Positives = 61/63 (96%)
Query: 436 DELEDNPNQSDLIEQASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCESQPM 495
+ELEDNPNQSDLIEQA+EMLYGLIHARYILTNRGI QM+EKYQ GDFG+CPRVYCE+QPM
Sbjct: 60 EELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPM 119
Query: 496 LPI 498
LPI
Sbjct: 120 LPI 122
Score = 64.6 bits (157), Expect = 4e-12
Identities = 34/40 (85%), Positives = 37/40 (92%)
Query: 77 QIDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPVDEDY 116
++DEDYIQDKFNLTGLNEQVPHYRQALDMILDLEP +E
Sbjct: 24 EVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELE 63
Score = 63.8 bits (155), Expect = 7e-12
Identities = 35/48 (72%), Positives = 37/48 (77%)
Query: 112 VDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPGSLKMSSSEEVSWI 159
VDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEP + + I
Sbjct: 25 VDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLI 72
Score = 36.5 bits (84), Expect = 0.011
Identities = 19/28 (67%), Positives = 24/28 (85%)
Query: 39 LYGFKIHSLAYQLQQNAAANFKTPVRAV 66
LYGFKIH +AYQLQ AA+NFK+PV+ +
Sbjct: 187 LYGFKIHPMAYQLQLQAASNFKSPVKTI 214
>1qf8_A Casein kinase II; casein kinase beta subunit (1-182), Ser/Thr
protein kinase, Zn finger, transferase; HET: MSE; 1.74A
{Homo sapiens} SCOP: g.41.4.1 PDB: 3eed_A 1rqf_A
Length = 182
Score = 249 bits (636), Expect = 5e-81
Identities = 164/279 (58%), Positives = 173/279 (62%), Gaps = 97/279 (34%)
Query: 150 MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDD 209
MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPD+
Sbjct: 1 MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDE 60
Query: 210 ELEDNPNQSDLIEQASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCESQPML 269
ELEDNPNQSDLIEQA+EMLYGLIHARYILTNRGI QM+EKYQ GDFG+CPRVYCE+QPML
Sbjct: 61 ELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPML 120
Query: 270 PIDDELEDNPNQSDLIEQASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCES 329
PI L D P ++ ++YC
Sbjct: 121 PIG--LSDIPGEA---------------------------------------MVKLYC-- 137
Query: 330 QPMLPIGLSDVPGEAMVKSYCPKCMDVYTPKSSRHHHTDGLSDVPGEAMVKSYCPKCMDV 389
PKCMDVYT
Sbjct: 138 ---------------------PKCMDVYT------------------------------- 145
Query: 390 YTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRPVNQ 428
PKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRP NQ
Sbjct: 146 --PKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRPANQ 182
Score = 96.5 bits (240), Expect = 2e-23
Identities = 56/63 (88%), Positives = 61/63 (96%)
Query: 436 DELEDNPNQSDLIEQASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCESQPM 495
+ELEDNPNQSDLIEQA+EMLYGLIHARYILTNRGI QM+EKYQ GDFG+CPRVYCE+QPM
Sbjct: 60 EELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPM 119
Query: 496 LPI 498
LPI
Sbjct: 120 LPI 122
Score = 64.2 bits (156), Expect = 3e-12
Identities = 34/40 (85%), Positives = 37/40 (92%)
Query: 77 QIDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPVDEDY 116
++DEDYIQDKFNLTGLNEQVPHYRQALDMILDLEP +E
Sbjct: 24 EVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELE 63
Score = 63.4 bits (154), Expect = 5e-12
Identities = 35/48 (72%), Positives = 37/48 (77%)
Query: 112 VDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPGSLKMSSSEEVSWI 159
VDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEP + + I
Sbjct: 25 VDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLI 72
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 59.9 bits (144), Expect = 1e-09
Identities = 70/524 (13%), Positives = 134/524 (25%), Gaps = 181/524 (34%)
Query: 90 TGLNEQVPHYRQAL-----DMILDLEPVD-EDYIQDKFNLTGLNE--QVPHYRQALDMIL 141
E Y+ L + + + D +D + + ++ +
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLF 68
Query: 142 DLEPGSLKMSSSEEVSWISWFCGLRGNEFFCEVDE-DYIQDKFNLTGLNEQVPHYRQ-AL 199
L E V +F EV +Y KF ++ + + RQ ++
Sbjct: 69 WT----LLSKQEEMVQ-----------KFVEEVLRINY---KFLMSPIKTE---QRQPSM 107
Query: 200 DMILDLEPDDELEDNPNQS---------DLIEQASEMLYGLIHARYILTN--RGIGQMI- 247
+ +E D L N NQ + + L L A+ +L + G G+
Sbjct: 108 MTRMYIEQRDRLY-NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV 166
Query: 248 -------EKYQTG--------DFGHC--PRVYCESQPML--PIDDELEDNPNQSDLIEQA 288
K Q + +C P E L ID + S I+
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226
Query: 289 SEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHCPRVYCESQPMLPIGLSDVPGEAMVKS 348
+ + R +L + + Y L + L +V +
Sbjct: 227 IHSIQAEL--RRLLKS-------------------KPYENC---LLV-LLNVQNAKAWNA 261
Query: 349 YCPKC-----------MDVYTPKSSRH----HHTDGL-----------------SDVPGE 376
+ C D + ++ H HH+ L D+P E
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 377 A-------------MVKSY-----------CPK-------CMDVYTPKSSRHHHTDGAYF 405
++ C K ++V P R + F
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381
Query: 406 --GTGFPHMLFMV----HPEYRPKRPVNQFVPSSRNDELEDNPNQSDLIEQASEMLYGL- 458
P +L + + VN+ S + +Q E +
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLH------------KYSLVEKQPKESTISIP 429
Query: 459 -IHARYILTNRGIGQM----IEKYQTGDFGHCPRVYCESQPMLP 497
I+ + + ++ Y P+ + + P
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNI------PKTFDSDDLIPP 467
Score = 51.0 bits (121), Expect = 7e-07
Identities = 43/367 (11%), Positives = 101/367 (27%), Gaps = 101/367 (27%)
Query: 27 ALLRIETDEKIGLYGF----KIHSLAYQLQQNAAANFKTPVRAVSY-NTGKRRDPQIDED 81
ALL + + + + G K +A + + K + + N P E
Sbjct: 143 ALLELRPAKNVLIDGVLGSGK-TWVALDVCLSYKVQCKMD-FKIFWLNLKNCNSP---ET 197
Query: 82 YIQDKFNLTGLNEQV-PHYRQALDMILDLEPVDEDYIQDKFNLTGLNEQVPHYRQALDMI 140
++ L L Q+ P++ D ++ + IQ + ++ Y L ++
Sbjct: 198 VLE---MLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKP---YENCL-LV 249
Query: 141 LDLEPGSLKMSSSEEVSWISWFCGLRGNEFFCEVDEDYI--QDKFNLTGLNEQVPHYRQA 198
L V + C++ + + K L+ +
Sbjct: 250 LL------------NV-QNAKA--WNAFNLSCKI---LLTTRFKQVTDFLSAATTTHISL 291
Query: 199 LDMILDLEPDDELE------DNPNQSDLIEQA---SEMLYGLIHA------------RYI 237
+ L PD+ D Q DL + + +I +++
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQ-DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Query: 238 LT---NRGIGQMIEKYQTGDFGHC--------------PRVYC-------ESQPMLPIDD 273
I + + ++ + +S M+ + +
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV-VVN 409
Query: 274 ELEDNPNQSDLIEQASEMLYGL--IHARYILTNRGIGQM----IEKYQTGDFGHCPRVYC 327
+L S + +Q E + I+ + + ++ Y P+ +
Sbjct: 410 KLH---KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI------PKTFD 460
Query: 328 ESQPMLP 334
+ P
Sbjct: 461 SDDLIPP 467
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 55.8 bits (134), Expect = 2e-08
Identities = 74/403 (18%), Positives = 126/403 (31%), Gaps = 158/403 (39%)
Query: 15 SSVKKTAKDSGPALLRIETD--EKIGLYGFKIHSLAYQL---QQNAAANFKTPVRAVSY- 68
S V+ + +L + E L G IH+LA +L K ++ +Y
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIK--NYI 127
Query: 69 ---NTGKRRDP------------------------Q-IDEDY---IQDKFN--------- 88
KR Q +DY ++D +
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL 187
Query: 89 -------LTGLNEQV----PHYRQALDMILDLE-----PVDEDY---IQDKFNLTGLNEQ 129
L+ L + Q L+++ LE P D+DY I L G+ Q
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP-DKDYLLSIPISCPLIGVI-Q 245
Query: 130 VPHYRQALDMILDLEPGSLK--------------------MSSSEE---------VSWIS 160
+ HY +L PG L+ + S E ++ +
Sbjct: 246 LAHYVVTAK-LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF 304
Query: 161 WFCGLRGNEFF--CEVDEDYIQDKFNLTGLNEQVPHYRQALDM--ILDLEPDDELED--- 213
+ G+R E + + ++D +L NE VP M I +L ++++D
Sbjct: 305 F-IGVRCYEAYPNTSLPPSILED--SLEN-NEGVPSP-----MLSISNL-TQEQVQDYVN 354
Query: 214 --N---PNQSD----LIEQASEM--------LYGL-IHARYILTNRGIGQMIEKYQTGDF 255
N P L+ A + LYGL + R G+ Q
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ---------- 404
Query: 256 GHCPRV-YCESQPM-----LPIDDELEDNPNQSDLIEQASEML 292
R+ + E + LP+ +P S L+ AS+++
Sbjct: 405 ---SRIPFSERKLKFSNRFLPV-----ASPFHSHLLVPASDLI 439
Score = 54.3 bits (130), Expect = 8e-08
Identities = 81/498 (16%), Positives = 152/498 (30%), Gaps = 170/498 (34%)
Query: 44 IHSLAYQLQQNAAANFKTPVRAVSYNTGKRRDPQIDE--------DYIQDKFNLTGLNEQ 95
+A QLQ+ P + + D Y+ +
Sbjct: 26 SFFIASQLQEQFNKILPEPTEGFAAD-----DEPTTPAELVGKFLGYVSSLVE----PSK 76
Query: 96 VPHYRQALDMILD-LEPVDEDYIQDK------FNLTGLNEQVP--------HYRQALDMI 140
V + Q L++ L E Y++ L N+ +Y A M
Sbjct: 77 VGQFDQVLNLCLTEFE---NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 141 ---LDLEPGS--LKMSSSEEVSWISWFCGLRGN--EFFCEVDEDY------IQDKFN--- 184
D + S + ++ F G +GN ++F E+ + Y + D
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGG-QGNTDDYFEELRDLYQTYHVLVGDLIKFSA 192
Query: 185 --LTGLNEQV----PHYRQALDMI--LDLEPDDELEDNPNQSDLIEQA-SEMLYGLIH-A 234
L+ L + Q L+++ L+ P + P++ L+ S L G+I A
Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLE-NPSNT----PDKDYLLSIPISCPLIGVIQLA 247
Query: 235 RYILTNRGIG----QMIEKYQTGDFGHCPRVYCESQPMLPI---DDELEDNPNQSDLIEQ 287
Y++T + +G ++ + G GH + + I D
Sbjct: 248 HYVVTAKLLGFTPGELRSYLK-GATGHSQGLV----TAVAIAETDSW-------ESFFVS 295
Query: 288 ASEMLYGLIHARYILTNRGIGQMIEKYQTGDFGHC---PRVYCESQ--------PMLPI- 335
+ + L IG + Y+ + + P + +S PML I
Sbjct: 296 VRKAITVLFF---------IG--VRCYEA--YPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 336 GLSDVPGEAMVKSYCPKCMDVYTPKSSRHHHTDGLSDVPGEAMVKSYCPKCMDVYTPKSS 395
L+ + V + + P + +S V G K + V
Sbjct: 343 NLTQEQVQDYVNK-----TNSHLPAGKQVE----ISLVNG--------AKNLVV------ 379
Query: 396 RHHHTDGAYFGTGFPHMLFMVHPEYR-------------P--KR---PVNQFVPSSRNDE 437
+G P L+ ++ R P +R N+F+P +
Sbjct: 380 -----------SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA---- 424
Query: 438 LEDNPNQSDLIEQASEML 455
+P S L+ AS+++
Sbjct: 425 ---SPFHSHLLVPASDLI 439
Score = 39.6 bits (92), Expect = 0.003
Identities = 56/372 (15%), Positives = 101/372 (27%), Gaps = 147/372 (39%)
Query: 141 LDLEPGSLKMSSSEEVSWI----SWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYR 196
L L GSL E + S+F +Q++FN +P
Sbjct: 9 LTLSHGSL------EHVLLVPTASFF--------IASQ----LQEQFNKI-----LP--- 42
Query: 197 QALDMILDLEPDDELEDNPNQSDLIEQASEMLYGLIHARYILTNRG-IGQMIEKYQTGDF 255
EP + + + E L +++ G + ++E + G F
Sbjct: 43 ---------EPTEGFAADDEPTTPAE-----LV----GKFL----GYVSSLVEPSKVGQF 80
Query: 256 GHCPRV---YCESQPM-----------LPIDDELEDNPNQSDLIEQASEMLYGLIHARYI 301
+ E+ + L +++ +LI+ Y I AR I
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL-VKTKELIKN-----Y--ITAR-I 131
Query: 302 LTNRGIGQM-----IEKYQTGD------FGHCPRVYCESQPMLPIGLSDVPGEAMVKSYC 350
+ R + G+ FG Q G +D E + Y
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFG--------GQ-----GNTDDYFEELRDLY- 177
Query: 351 PKCMDVYTPKSSRHHHTDGLSDVPGEAMVKSYCPKCMDVYTPKSSRHHHTDGAYFGTGFP 410
Y +V + + R F G
Sbjct: 178 ----QTYHV------------------LVGDLIKFSAETLSE-LIRTTLDAEKVFTQGLN 214
Query: 411 HMLFMVHPEYRPKRPVNQFVPSSRNDELEDNPNQSDLIEQASEMLYGLIHARYILTNRGI 470
+ ++ +P P + +P S P LI + L H Y++T + +
Sbjct: 215 ILEWLENPSNTPDKDYLLSIPISC-------P----LIG-----VIQLAH--YVVTAKLL 256
Query: 471 GQMIEKYQTGDF 482
G + G+
Sbjct: 257 G-----FTPGEL 263
Score = 34.6 bits (79), Expect = 0.099
Identities = 23/124 (18%), Positives = 35/124 (28%), Gaps = 49/124 (39%)
Query: 26 PALLRIETDEKIGLYGFKIHSLAYQLQQNAAANFKTPVRAVSYNTGKRRDPQIDEDYIQD 85
PA I D F + + PV Y+T D ++
Sbjct: 434 PASDLINKDLVKNNVSFNAKDI------------QIPV----YDTFDGSDLRVLSG---- 473
Query: 86 KFNLTGLNEQVPHYRQALDMILDLEPVD-EDYIQDKFNLTGLNEQVPHYRQALDMILDLE 144
+++ + +D I+ PV E +F T H ILD
Sbjct: 474 --SIS---------ERIVDCII-RLPVKWET--TTQFKAT-------H-------ILDFG 505
Query: 145 PGSL 148
PG
Sbjct: 506 PGGA 509
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 37.6 bits (86), Expect = 0.003
Identities = 9/21 (42%), Positives = 14/21 (66%), Gaps = 3/21 (14%)
Query: 15 SSVKKTAKDSGPAL-LR--IE 32
+S+K A DS PAL ++ +E
Sbjct: 27 ASLKLYADDSAPALAIKATME 47
Score = 31.5 bits (70), Expect = 0.36
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 245 QMIEKYQTGDFGHCPRVYC-ESQPMLPIDDELE 276
Q ++K Q ++Y +S P L I +E
Sbjct: 20 QALKKLQAS-----LKLYADDSAPALAIKATME 47
Score = 27.2 bits (59), Expect = 8.2
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 309 QMIEKYQTGDFGHCPRVYC-ESQPMLPI 335
Q ++K Q ++Y +S P L I
Sbjct: 20 QALKKLQAS-----LKLYADDSAPALAI 42
Score = 27.2 bits (59), Expect = 8.2
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 472 QMIEKYQTGDFGHCPRVYC-ESQPMLPI 498
Q ++K Q ++Y +S P L I
Sbjct: 20 QALKKLQAS-----LKLYADDSAPALAI 42
>2j5b_A Tyrosyl-tRNA synthetase; ligase, protein biosynthesis, ATP-binding;
HET: TYE; 2.20A {Acanthamoeba polyphaga mimivirus}
Length = 348
Score = 35.1 bits (81), Expect = 0.040
Identities = 16/76 (21%), Positives = 24/76 (31%), Gaps = 23/76 (30%)
Query: 101 QALDMILDLEPVDEDYIQDKFNLTGLNEQVPHYRQALD----------------MILDLE 144
QA D + +L P D Q +Q A++ M++ L
Sbjct: 175 QAAD-VFELVPEGIDICQ------LGIDQRKVNMLAIEYANDRGLKIPISLSHHMLMSLS 227
Query: 145 PGSLKMSSSEEVSWIS 160
KMS S+ I
Sbjct: 228 GPKKKMSKSDPQGAIF 243
>2p1w_A 27.5 kDa virulence protein; beta sheet- alpha helix, lyase; 2.30A
{Salmonella enteritidis}
Length = 250
Score = 34.8 bits (79), Expect = 0.047
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 71 GKRRDPQIDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPVDEDYIQDKFNLTGLNEQV 130
+R PQ + DKF+++ L + VP QAL +L ED DK+ +T + + V
Sbjct: 98 ARRESPQSQGKFAGDKFHISVLRDMVPQAFQALSGLL----FSEDSPVDKWKVTDMEKVV 153
Query: 131 PHYRQAL 137
R +L
Sbjct: 154 QQARVSL 160
>3i0u_A Phosphothreonine lyase OSPF; APO-structure, type III effector,
phospho lyase, secreted, virulence, structural genomics;
2.70A {Shigella flexneri}
Length = 218
Score = 34.0 bits (77), Expect = 0.075
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 72 KRRDPQIDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPVDEDYIQDKFNLTGLNEQVP 131
R +PQ D++ DKF+++ EQVP Q L +L ED DK+ +T +N
Sbjct: 67 CRENPQSKGDFVGDKFHISIAREQVPLAFQILSGLL----FSEDSPIDKWKITDMNRVSQ 122
Query: 132 HYRQAL 137
R +
Sbjct: 123 QSRVGI 128
>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural
genomics, PSI-2, protein structure initiative; NMR
{Escherichia coli} SCOP: g.41.18.1
Length = 101
Score = 32.3 bits (73), Expect = 0.082
Identities = 14/50 (28%), Positives = 21/50 (42%)
Query: 349 YCPKCMDVYTPKSSRHHHTDGLSDVPGEAMVKSYCPKCMDVYTPKSSRHH 398
+C YT SS HHH VP + ++ +CP+C V +
Sbjct: 1 FCLTLRRRYTMGSSHHHHHHSSGLVPRGSHMELHCPQCQHVLDQDNGHAR 50
>3bo6_A Hydrophilic protein, VIRA protein; alpha/beta fold of
phosphothreonine lyase; 1.40A {Chromobacterium
violaceum} PDB: 2z8n_A 2z8m_A 2z8o_A* 2z8p_A* 2q8y_A*
Length = 220
Score = 31.7 bits (71), Expect = 0.43
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 72 KRRDPQIDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPVDEDYIQDKFNLTGLNEQVP 131
R +PQ D+ DKF+++ EQVP QAL +L D DK+ +T +
Sbjct: 69 HRENPQCKGDFAGDKFHISVQREQVPQAFQALSGLL----FSVDSPIDKWKVTDMERVDQ 124
Query: 132 HYRQAL 137
R A+
Sbjct: 125 QSRVAV 130
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease
5'-3', R interference; 3.20A {Drosophila melanogaster}
Length = 1140
Score = 31.5 bits (70), Expect = 0.81
Identities = 21/126 (16%), Positives = 34/126 (26%), Gaps = 8/126 (6%)
Query: 342 GEAMVKSYCPKCMDVYTPKSSRHHHTDGLSDVPGEAMVKSYCPKCMDVYTPKSSRHHHTD 401
G V Y + L + + K +++ +
Sbjct: 576 GPMYVYKYSTVAQGPM----PAYPPLRALPVLYCTEVAKWSHEIAVNLPYSVCIELPNAA 631
Query: 402 GAYFGTGFPHMLFMVHPEYRPKRPVNQFVPSSRND----ELEDNPNQSDLIEQASEMLYG 457
F GFP M + V F SRN + + L AS+ L
Sbjct: 632 RTVFFPGFPTMQHLPFDFELRNDRVKVFEQVSRNQNIVLKPRKRQLEDTLTAVASQYLGK 691
Query: 458 LIHARY 463
+IH +
Sbjct: 692 VIHVGW 697
>1b0b_A Hemoglobin; hemoprotein, sulfide carrier, globins, oxygen
transport, oxygen storage/transport complex; HET: HEM;
1.43A {Lucina pectinata} SCOP: a.1.1.2 PDB: 1ebt_A*
1flp_A* 1moh_A*
Length = 142
Score = 29.5 bits (66), Expect = 1.2
Identities = 10/61 (16%), Positives = 15/61 (24%), Gaps = 5/61 (8%)
Query: 401 DGAYFGTGFPHMLFMVHPEYRPKRPVNQFVPSSRNDELEDNPNQSDLIEQASEMLYGLIH 460
G F LF H + K F N ++ QA + +
Sbjct: 20 AWGTAGPEFFMALFDAHDDVFAK-----FSGLFSGAAKGTVKNTPEMAAQAQSFKGLVSN 74
Query: 461 A 461
Sbjct: 75 W 75
>3mjo_A Ribonucleotide reductase subunit R2F; Mn ribonucleotide reductase,
RNR, radical enzyme, split SIGN metallocofactor; 1.36A
{Corynebacterium ammoniagenes} PDB: 1uzr_A*
Length = 296
Score = 30.0 bits (68), Expect = 1.7
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 8/66 (12%)
Query: 74 RDPQIDEDYIQDKFNLTGLNEQVPHYRQA------LDMILDLEPVDEDYIQDKFNLTGLN 127
RD + YI K+ G+ + Q D++ DL + +Y +D ++ G
Sbjct: 199 RDESVHGYYIGYKYQ-QGVKKL-SEAEQEEYKAYTFDLMYDLYENEIEYTEDIYDDLGWT 256
Query: 128 EQVPHY 133
E V +
Sbjct: 257 EDVKRF 262
>3dhz_A Ribonucleotide reductase subunit R2F; metal free, hydrogen bond,
metal binding protein; 1.63A {Corynebacterium
ammoniagenes} SCOP: a.25.1.2 PDB: 1kgo_A 1kgp_A 1oqu_A
1kgn_A
Length = 329
Score = 30.0 bits (68), Expect = 1.9
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 8/66 (12%)
Query: 74 RDPQIDEDYIQDKFNLTGLNEQVPHYRQA------LDMILDLEPVDEDYIQDKFNLTGLN 127
RD + YI K+ G+ + Q D++ DL + +Y +D ++ G
Sbjct: 200 RDESVHGYYIGYKYQ-QGVKKL-SEAEQEEYKAYTFDLMYDLYENEIEYTEDIYDDLGWT 257
Query: 128 EQVPHY 133
E V +
Sbjct: 258 EDVKRF 263
>4dr0_A Ribonucleoside-diphosphate reductase subunit beta; ribonucleotide
reductase, manganese, oxidoreductase; 1.90A {Bacillus
subtilis}
Length = 350
Score = 29.6 bits (67), Expect = 2.3
Identities = 12/66 (18%), Positives = 27/66 (40%), Gaps = 8/66 (12%)
Query: 74 RDPQIDEDYIQDKFNLTGLNEQVPHYRQ------ALDMILDLEPVDEDYIQDKFNLTGLN 127
RD I Y+ + + ++ A+D++ L + +Y +D ++ GL+
Sbjct: 217 RDEAIHGVYVGLLAQE--IYNKQTEEKKAELREFAIDLLNQLYENELEYTEDLYDQVGLS 274
Query: 128 EQVPHY 133
V +
Sbjct: 275 HDVKKF 280
>3pt8_A Hemoglobin II; oxygen carrier, oxygen transport; HET: HEM; 1.76A
{Lucina pectinata} PDB: 3pi1_A* 2olp_A* 3pi3_A* 3pi4_A*
3pt7_A* 3pi2_A*
Length = 152
Score = 28.7 bits (64), Expect = 2.3
Identities = 13/61 (21%), Positives = 18/61 (29%), Gaps = 5/61 (8%)
Query: 401 DGAYFGTGFPHMLFMVHPEYRPKRPVNQFVPSSRNDELEDNPNQSDLIEQASEMLYGLIH 460
+G G GF LF HPE F L + + Q+ G+
Sbjct: 22 NGVSNGQGFYMDLFKAHPETL-----TPFKSLFGGLTLAQLQDNPKMKAQSLVFCNGMSS 76
Query: 461 A 461
Sbjct: 77 F 77
>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase;
HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A*
2jas_A*
Length = 205
Score = 28.8 bits (64), Expect = 3.1
Identities = 14/111 (12%), Positives = 38/111 (34%), Gaps = 5/111 (4%)
Query: 101 QALDMILDLEPVDEDYIQDKF----NLTGLNEQVPHYRQALDMILDLEPGSLKMSSSEEV 156
+ L + EPV+E+ +++ T Q+ + + + +
Sbjct: 22 KKLGYEIFKEPVEENPYFEQYYKDLKKTVFKMQIYMLTARSKQLKQAKNLENIIFDRTLL 81
Query: 157 SWISWFCGLRGNEFFCEVDEDYIQDKFN-LTGLNEQVPHYRQALDMILDLE 206
+ + D + D +N + N ++P + + D+++ L
Sbjct: 82 EDPIFMKVNYDLNNVDQTDYNTYIDFYNNVVLENLKIPENKLSFDIVIYLR 132
>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA
complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA
6MA; 2.05A {Streptococcus pneumoniae}
Length = 257
Score = 28.0 bits (62), Expect = 5.9
Identities = 22/96 (22%), Positives = 32/96 (33%), Gaps = 27/96 (28%)
Query: 347 KSYCPKCMDVYTPKSSRHHHTDGLSDVPGEAMVKS-YCPKCMDVYTPKSSRHHH----TD 401
+SYCP C + L+ V YC C + + KS + + D
Sbjct: 34 QSYCPNCGNNP------------LNHFENNRPVADFYCNHCSEEFELKSKKGNFSSTIND 81
Query: 402 GAYF-------GTGFPHMLFMVHPEYRPKRPVNQFV 430
GAY P+ F+ Y VN F+
Sbjct: 82 GAYATMMKRVQADNNPNFFFL---TYTKNFEVNNFL 114
>1hlb_A Hemoglobin (deoxy); oxygen transport; HET: HEM; 2.50A {Caudina
arenicola} SCOP: a.1.1.2
Length = 158
Score = 27.5 bits (61), Expect = 6.4
Identities = 8/61 (13%), Positives = 15/61 (24%), Gaps = 6/61 (9%)
Query: 401 DGAYFGTGFPHMLFMVHPEYRPKRPVNQFVPSSRNDELEDNPNQSDLIEQASEMLYGLIH 460
+ F T +F P + K F P + + A + +
Sbjct: 31 NKTSFVTDVFIRIFAYDPSAQNK-----F-PQMAGMSASQLRSSRQMQAHAIRVSSIMSE 84
Query: 461 A 461
Sbjct: 85 Y 85
>3vgj_A Tyrosyl-tRNA synthetase, putative; tyrrs, ligase; HET: YAP; 2.21A
{Plasmodium falciparum}
Length = 373
Score = 28.2 bits (63), Expect = 6.5
Identities = 17/69 (24%), Positives = 24/69 (34%), Gaps = 11/69 (15%)
Query: 101 QALDMIL---DLEPVDEDYIQDKFN------LTGLNEQVPHYRQALDMILDLEPGSLKMS 151
Q D+ D+ + D Q K N + + M+ L G KMS
Sbjct: 192 QCADIFFLNVDICQLGID--QRKVNMLAREYCDIKKIKKKPVILSHGMLPGLLEGQEKMS 249
Query: 152 SSEEVSWIS 160
S+E S I
Sbjct: 250 KSDENSAIF 258
>1tjl_A DNAK suppressor protein; DKSA, transcription factor, RNA
polymerase, stringent response, PPGPP, riken structural
genomics/proteomics initiative; 2.00A {Escherichia coli}
SCOP: a.2.14.1 g.39.1.13 PDB: 3h3p_S
Length = 151
Score = 27.2 bits (60), Expect = 7.6
Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 11/80 (13%)
Query: 190 EQVPHYRQAL-DMILDLE------PDDELEDNPNQSDLIEQASEMLYGLIHARYILTNRG 242
Q+ H+R+ L L ++ N D +++A++ + R R
Sbjct: 35 AQLAHFRRILEAWRNQLRDEVDRTVTHMQDEAANFPDPVDRAAQEEEFSLELRNRDRERK 94
Query: 243 ----IGQMIEKYQTGDFGHC 258
I + ++K + DFG+C
Sbjct: 95 LIKKIEKTLKKVEDEDFGYC 114
>3pt8_B Hemoglobin III; oxygen carrier, oxygen transport; HET: HEM; 1.76A
{Lucina pectinata} PDB: 3pt7_B*
Length = 152
Score = 27.2 bits (60), Expect = 7.8
Identities = 11/61 (18%), Positives = 18/61 (29%), Gaps = 5/61 (8%)
Query: 401 DGAYFGTGFPHMLFMVHPEYRPKRPVNQFVPSSRNDELEDNPNQSDLIEQASEMLYGLIH 460
+ GT F LF +P+ F +N N + Q+ G+
Sbjct: 22 NAVTNGTNFYMDLFKAYPDTL-----TPFKSLFQNVSFNQMTNHPTMKAQSLVFCNGMSS 76
Query: 461 A 461
Sbjct: 77 F 77
>3pdi_B Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 458
Score = 28.2 bits (63), Expect = 7.9
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 4 RTGSADLIVGGSSVKKTAKDSGPALLRI 31
R G A L++G S +A+ G LLR
Sbjct: 372 RAGQAQLVIGNSHALASARRLGVPLLRA 399
>1mio_B Nitrogenase molybdenum iron protein (beta chain); HET: HCA CFM CLP;
3.00A {Clostridium pasteurianum} SCOP: c.92.2.3
Length = 458
Score = 27.7 bits (62), Expect = 9.2
Identities = 5/28 (17%), Positives = 12/28 (42%)
Query: 4 RTGSADLIVGGSSVKKTAKDSGPALLRI 31
+ DL++ + K A++ +R
Sbjct: 382 KNEGVDLLISNTYGKFIAREENIPFVRF 409
>3f1i_S STAM-1, signal transducing adapter molecule 1; HGS, ESCRT,
ubiquitin, MVB, endosome, membrane, metal-
phosphoprotein, protein transport, transport; 2.30A
{Homo sapiens}
Length = 77
Score = 25.7 bits (56), Expect = 9.8
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 197 QALDMILDLEPDDELEDNPNQSDLIEQASEM 227
Q L M+ +P D+ D P L +M
Sbjct: 9 QLLQMLQSTDPSDDQPDLPELLHLEAMCHQM 39
>2p0v_A Hypothetical protein BT3781; alpha-beta protein, structural
genomics, PSI-2, protein structure initiative; 2.10A
{Bacteroides thetaiotaomicron vpi-5482} SCOP: a.102.1.8
Length = 489
Score = 27.6 bits (61), Expect = 10.0
Identities = 12/72 (16%), Positives = 26/72 (36%), Gaps = 13/72 (18%)
Query: 134 RQALDMILDLEPGSLKMSSSEEV--------SWISWFCGLRGNEFFCEVDEDYIQDKFNL 185
+ + M++D + G+ M S +W +W N F E+ + +
Sbjct: 421 KTCIKMLMDTDAGTGFMHESFNKNDPKNFTRAWFAW-----QNTLFGELILKLVNEGKVD 475
Query: 186 TGLNEQVPHYRQ 197
+ Q+ H+
Sbjct: 476 LLNSIQLEHHHH 487
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.137 0.418
Gapped
Lambda K H
0.267 0.0569 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,987,212
Number of extensions: 494088
Number of successful extensions: 1219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1206
Number of HSP's successfully gapped: 54
Length of query: 498
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 400
Effective length of database: 3,965,535
Effective search space: 1586214000
Effective search space used: 1586214000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.9 bits)